Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Mafg

Cell type

Cell type Class
Neural
Cell type
Astrocytes
MeSH Description
A class of large neuroglial (macroglial) cells in the central nervous system - the largest and most numerous neuroglial cells in the brain and spinal cord. Astrocytes (from "star" cells) are irregularly shaped with many long processes, including those with "end feet" which form the glial (limiting) membrane and directly and indirectly contribute to the BLOOD-BRAIN BARRIER. They regulate the extracellular ionic and chemical environment, and "reactive astrocytes" (along with MICROGLIA) respond to injury.

Attributes by original data submitter

Sample

source_name
EAE_IP_astrocytes
strain
C57BL/6
genotype/variation
wild type
Sex
female
sample group
experimental autoimmune encephalomyelitis (EAE)
cell type
Flow cytometry sorted astrocytes
chip antibody
MAFG antibody (Genetex, GTX114541)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Each CNS was isolated per mouse. A cell suspension was generated by trypsinization, neutralization, and 70um filtration of cell extract. Cells were centrifuged, resuspended in 30% Percoll, centrifuged, washed in PBS, and stained with primary antibodies for flow cytometry. Once cells were sorted, chromatin was isolated using the Active Motif ChIP-IT Express Enzymatic shearing kit. Chromatin complexes were IPed with MAFG antibody (Genetex, GTX114541), cross-links were reversed, and DNA was cleaned up for library prep using QIAquick PCR purification kit. NEBNext Ultra II DNA Library Prep Kit

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
74478635
Reads aligned (%)
92.8
Duplicates removed (%)
86.0
Number of peaks
190 (qval < 1E-05)

mm9

Number of total reads
74478635
Reads aligned (%)
92.7
Duplicates removed (%)
86.1
Number of peaks
158 (qval < 1E-05)

Base call quality data from DBCLS SRA